diff options
Diffstat (limited to 'nixpkgs/pkgs/applications/science/biology/snpeff')
-rw-r--r-- | nixpkgs/pkgs/applications/science/biology/snpeff/default.nix | 34 |
1 files changed, 34 insertions, 0 deletions
diff --git a/nixpkgs/pkgs/applications/science/biology/snpeff/default.nix b/nixpkgs/pkgs/applications/science/biology/snpeff/default.nix new file mode 100644 index 000000000000..4c32516b29f6 --- /dev/null +++ b/nixpkgs/pkgs/applications/science/biology/snpeff/default.nix @@ -0,0 +1,34 @@ +{lib, stdenv, fetchurl, jre, unzip, makeWrapper}: + +stdenv.mkDerivation rec { + pname = "snpeff"; + version = "4.3t"; + + src = fetchurl { + url = "mirror://sourceforge/project/snpeff/snpEff_v${builtins.replaceStrings [ "." ] [ "_" ] version}_core.zip"; + sha256 = "0i12mv93bfv8xjwc3rs2x73d6hkvi7kgbbbx3ry984l3ly4p6nnm"; + }; + + nativeBuildInputs = [ makeWrapper unzip ]; + buildInputs = [ jre ]; + + sourceRoot = "snpEff"; + + installPhase = '' + mkdir -p $out/libexec/snpeff + cp *.jar *.config $out/libexec/snpeff + + mkdir -p $out/bin + makeWrapper ${jre}/bin/java $out/bin/snpeff --add-flags "-jar $out/libexec/snpeff/snpEff.jar" + makeWrapper ${jre}/bin/java $out/bin/snpsift --add-flags "-jar $out/libexec/snpeff/SnpSift.jar" + ''; + + meta = with lib; { + description = "Genetic variant annotation and effect prediction toolbox"; + license = licenses.lgpl3; + homepage = "http://snpeff.sourceforge.net/"; + maintainers = with maintainers; [ jbedo ]; + platforms = platforms.all; + }; + +} |